Limit : all time
all time today this week this month this year
122,202 results • Page 674 of 2445
Sort: Rank
Rank Views Votes Replies
2
votes
2
replies
2.1k
views
extract UTRs regions from gff file
gff UTR
updated 4.6 years ago by ▴ 110 • written 4.6 years ago by ▴ 60
1
vote
3
replies
1.5k
views
Differentially expression analysis
rnaseq DEanalysis
updated 4.6 years ago by ★ 8.6k • written 4.6 years ago by ▴ 30
0
votes
0
replies
697
views
Does PRIDE have peptides from nr, RefSeq, or ensembl lnRNAs?
PRIDE ensembl peptides seq ref
updated 4.6 years ago by 11k • written 4.6 years ago by • 0
1
vote
2
replies
1.2k
views
Does anyone know how to import 1000 Genomes Project VCF files into usegalaxy.org?
1000genomes concatenatr vcf galaxy
4.6 years ago by screadore ▴ 20
1
vote
2
replies
1.4k
views
Comparing module topology between two independently constructed networks from wgcna
Comparison WGCNA NETWORK
4.6 years ago by Antonio.Aubry ▴ 10
1
vote
4
replies
1.5k
views
Get the percentage of fragment length that is less than 120bp
CutAndRun
updated 2.7 years ago by 45k • written 4.6 years ago by ▴ 30
0
votes
0
replies
1.3k
views
What are the units for the force output by nstfout, the velocity output by nstvout, and the coordinates output by nstxout in gromacs?
gromacs md-simulation
4.6 years ago by honjamaka • 0
2
votes
3
replies
2.0k
views
Cytoscape: Advice on best analysis methods for PPI network
ontology network gene PPI cytoscape
updated 4.6 years ago by ▴ 60 • written 4.6 years ago by ▴ 10
0
votes
2
replies
2.3k
views
Plasmid assembly of Oxford nanopore sequencing reads
plasmid assembly nanopore oxford sequencing
4.6 years ago by MG_19 • 0
1
vote
1
reply
925
views
Do you know the code for this plot
gene
updated 4.6 years ago by ★ 19k • written 4.6 years ago by ★ 4.4k
0
votes
2
replies
791
views
how can I use cytoscape for gene and gene function visualiztion
Cytoscape RNAseq GO
4.6 years ago by BISEP ▴ 10
3
votes
3
replies
1.5k
views
from fasta to gtf format?
gtf DE fasta
updated 22 months ago by ▴ 260 • written 4.6 years ago by ▴ 270
5
votes
3
replies
1.7k
views
How to calculate the p-value (?) using LRT from codeml output ?
alignment DNA Gene RNA
4.6 years ago by sunnykevin97 ▴ 1000
5
votes
4
replies
2.3k
views
Existing Glycomics/Glycan databases with sugar modifications?
glycomics database sugars
updated 4.6 years ago by ▴ 20 • written 7.5 years ago by 22k
0
votes
6
replies
4.2k
views
What do you do with the data processed after running metaspades/spades?
metaspades spades
updated 4.6 years ago by 3.9k • written 4.6 years ago by ▴ 260
0
votes
1
reply
1.3k
views
Cannot compile METAL
Meta-analysis compilation METAL
updated 4.6 years ago by 154k • written 4.6 years ago by ▴ 10
6
votes
7
replies
3.1k
views
Assessing read support for coding sequences predicted by TransDecoder
cds prediction transdecoder de novo assembly
updated 4.6 years ago by ▴ 590 • written 5.0 years ago by ★ 2.9k
4
votes
6
replies
2.1k
views
In need of help with grad school genomic analysis project
project gradschool anaylsis data
updated 4.6 years ago by ▴ 60 • written 4.6 years ago by ▴ 10
4
votes
4
replies
1.9k
views
Annotating a genome using a previous annotation file
Annotation
4.6 years ago by arturo.marin ▴ 20
0
votes
0
replies
757
views
Probabilistic modeling of CpG ß-values
statistics epigenetics methylation
updated 4.4 years ago by 45k • written 4.6 years ago by ▴ 70
0
votes
2
replies
1.4k
views
Haplotype Calling Using GATK HaplotypeCaller to Get Exact 35718025 Positions/Loci
GATK HaplotypeCaller HaplotypeCalling
4.6 years ago by yenon118 • 0
0
votes
0
replies
741
views
Measuring diffeences in specific OUTs instead of full smaples in quiime2
OTU quiime2
4.6 years ago by blur ▴ 280
0
votes
0
replies
859
views
how to do manual check on retrotransposition insertions with IGV
check mobile element manual IGV retrotransposition
4.6 years ago by jueritation • 0
0
votes
1
reply
883
views
Technical single-cell question
RNAseq singlecell seurat scRNAseq
updated 4.6 years ago by 90k • written 4.6 years ago by • 0
0
votes
0
replies
929
views
RFECV (Recursive Feature Elimination with Cross Validation) grid scores discrepancies
RFECV RFE CV
4.6 years ago by ivnnvi • 0
24
votes
14
replies
21k
views
8 follow
Extracting Subsets Of Reads From A Bam File
bam samtools sequencing
updated 3.2 years ago by 45k • written 13.4 years ago by ▴ 80
1
vote
5
replies
2.0k
views
Problem using GenomicRanges package
R GenomicRanges
updated 2.7 years ago by 45k • written 4.6 years ago by • 0
0
votes
2
replies
1.8k
views
Trimmomatic log file format explanation?
Linux Trimmomatic
4.6 years ago by willbrown • 0
0
votes
0
replies
884
views
Job: Manager of Laboratory, Safety and Facility Operations
Operations Safety Facility
4.6 years ago by BerkeleyLab ▴ 70
1
vote
3
replies
1.2k
views
problem in creating an object for a list of fasta files
basename
4.6 years ago by evafinegan • 0
2
votes
8
replies
2.5k
views
Simple Progress Bar with Alignment
Progress Hisat2 Alignment Sequencing
4.6 years ago by kevin.maroney • 0
0
votes
1
reply
1.1k
views
GTFtools with Homo_sapiens.GRCh38.103.gtf encoding error in python
GTFtools Encoding python3 GRCh38.103
4.6 years ago by Doreen • 0
0
votes
0
replies
1.2k
views
Job: Software Developer
Biophys Molecular
4.6 years ago by BerkeleyLab ▴ 70
1
vote
1
reply
2.6k
views
How to analysis 4c seq 3c seq data
3c seq 4c seq alignment
updated 4.6 years ago by ▴ 380 • written 7.7 years ago by ▴ 30
6
votes
3
replies
1.7k
views
recent Hi-C databases
hi-C 4C 3C
updated 4.6 years ago by ▴ 380 • written 4.9 years ago by ★ 1.4k
2
votes
5
replies
2.8k
views
Bam file metrics
ngs bam gatk
updated 4.6 years ago by 45k • written 4.6 years ago by ▴ 30
4
votes
8
replies
3.3k
views
How to extend ChIP-seq reads from BAM file ?
read-extension NGS ChIP-seq
4.6 years ago by jseg • 0
0
votes
4
replies
1.8k
views
quick way to get samples that are NOT homozygous reference for a given record using bcftools?
bcftools
4.6 years ago by curious ▴ 900
8
votes
7
replies
2.6k
views
Whole genome species clustering
phylogeny assembly phylogenetics
updated 2.2 years ago by ▴ 10 • written 4.6 years ago by ▴ 110
0
votes
3
replies
1.4k
views
Plink: Number of Samples reducing after merging multiple bed,bim,fam files with Plink's --merge-list function
--merge-list fam_file Plink
4.6 years ago by Swetaleena • 0
1
vote
2
replies
1.4k
views
single cell RNA QC
scRNA QC
4.6 years ago by leranwangcs ▴ 150
0
votes
0
replies
1.3k
views
Need to extract specific VCF sample IDs from 1000Genomes project in the group 30x 1000 genomes genotypes aligned to gr38
1000genomes extraction vcf data
4.6 years ago by screadore ▴ 20
1
vote
6
replies
2.1k
views
Next Generation Sequencing: in which sequencing technology the read can Not exceed the fragment length?
NGS Nanopore Illumina Pacbio
updated 4.6 years ago by 16k • written 4.6 years ago by ▴ 20
1
vote
1
reply
978
views
How to identify first codon (Methionine) misssense variants?
Mutation ANNOVAR Missense
updated 4.6 years ago by 166k • written 4.6 years ago by ▴ 50
2
votes
2
replies
1.1k
views
Forum: What is your experience with the customer support of Oxford University Press?
oup
updated 4.6 years ago by ★ 90k • written 4.6 years ago by ▴ 20
0
votes
1
reply
1.3k
views
How to solve Warning: [blastx] Taxonomy name
alignment blastx warning blast
updated 4.6 years ago by 154k • written 4.6 years ago by ▴ 770
7
votes
3
replies
3.0k
views
News: New NCBI Datasets home and documentation pages provide easier access
ncbi gene SARS-CoV-2 genome
updated 4.6 years ago by 103k • written 4.6 years ago by ▴ 50
5
votes
3
replies
2.5k
views
Identification of modules of genes that vary over pseudotime (scRNA-seq pseudotime analysis)
modules scRNA-seq singlecell pseudotime RNA-seq
updated 4.6 years ago by ★ 19k • written 4.6 years ago by ▴ 170
1
vote
1
reply
706
views
How align identical sequence from two dataframe in a new dataframe ?
alignment Rstudio aminoacid Identical sequence
updated 4.6 years ago by 90k • written 4.6 years ago by • 0
0
votes
0
replies
1.1k
views
What is "rl" in SAM format
SAM format
4.6 years ago by ymat • 0
122,202 results • Page 674 of 2445
Recent Votes
A: Regarding Microarray Platforms
strong appearing variant not found by haplotypecaller in -ERC mode and deepvariant but with haplotypecaller in normal mode
Answer: How can I easily remove overlapping transcripts, keeping only longest transcript
Answer: Log2 transformation is well used, but is there a good paper that can be used as
Answer: Flatten a GTF
Answer: RNA-seq - Creating SAF from NCBI gff for Subread featureCounts - keep 'gene' or
Can EdgeR of DeSeq be used for Single-cell RNA-seq?
Recent Locations • All
Hong Kong, 27 minutes ago
United States, 40 minutes ago
USA, 40 minutes ago
Japan, 1 hour ago
UK, 1 hour ago
United States, 1 hour ago
United States, 1 hour ago
Recent Awards • All
Popular Question to Lila M ★ 1.3k
Popular Question to ecSeq Bioinformatics ▴ 20
Popular Question to QX ▴ 80
Teacher to dthorbur ★ 3.2k
Popular Question to colindaven 8.1k
Teacher to ATpoint 90k
Popular Question to san96 ▴ 190
Recent Replies
Comment: Visualize methylation status in Pacbio Hifi read by cmdcolin ★ 4.4k
(as the JBrowse dev) I'm glad to hear this. if you see any trouble with it feel free to let me know, I have tried to keep up to date with m…
Comment: low quality data or file name swapping -- cellranger arc errors when processing by Wu-Sheng Zhang • 0
Got it! I will try to switch their name and re-run the cellranger arc. Thank you very much, @arup !
Comment: low quality data or file name swapping -- cellranger arc errors when processing by Arup Ghosh 3.5k
The barcode files with 24nt read length W71_LUNGrep2_S6_L001_R3_001.fastq.gz and W71_LUNGrep2_S6_L002_R3_001.fastq.gz should be the R2.
Comment: ID unifiying across different datasets by GenoMax 154k
Each database has their own method of annotation/validation. Depending on resources available there may be a lag between the databases in t…
Comment: low quality data or file name swapping -- cellranger arc errors when processing by Wu-Sheng Zhang • 0
Hi @arup , thank you very much for your suggestions, and here are the results -- they seems correct. May I have your suggestions? Thank you…
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding by samuel.a.odonnell ▴ 640
I don't believe merqury ignores softmasked (lower case) nucleotides so I don't think that is the case. From what it sounds like, during th…
Comment: ID unifiying across different datasets by zizigolu ★ 4.4k
Thanks a lot to be helpful I’m trying to build a complete `UniProtID` to `GeneSymbol` lookup table and I’m running into a wall. I’ve alrea…
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by thomas.heigl.ibk ▴ 20
thanks for the quick reply. i posted the screenshot. gatk-internally, there is still the difference using -ERC or not, priot is getting …
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by thomas.heigl.ibk ▴ 20
here the igv view. showing the histogram for all samples plus the reads for one: ![enter image description here][1] and expanded view of …
Comment: low quality data or file name swapping -- cellranger arc errors when processing by Arup Ghosh 3.5k
Check the read lengths to make sure the files are correct.
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by Pierre Lindenbaum 166k
> Any suggestions or help you could share please, show us an IGV screenshot of the position GATK realign the reads locally, discards read…
Comment: Can i use orthofinder for small protein datasets and not full proteome? by alexandrakortsi • 0
By sequence. Thank you for your response!
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding by xinguok794 ▴ 10
Thank you for your reply! Unfortunately, despite running YAHS with `--no-contig-ec`, the QV value of the resulting FASTA file did not impro…
Comment: Subsetting before QC in Spatial Transcriptomics by Kent ▴ 30
Hi Kevin, Thanks for the detailed explanation. Due to the characteristics of the datasets, we initially used very lenient quality control…
Comment: Midpoint rooting IQTREE newick file moves node support around by Luca Arbore ▴ 10
Thank you very much Kevin, it worked!
Traffic: 2965 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6